What I would do, is disable all your mods & start a new awakening game with a new warden & see if the skills and talents are there.
Also look in C:\Users\XXXXXX\Documents\BioWare\Dragon Age\packages\core\override & see if you have any .gda files that start with abi_
If they are back when your mods are disabled, then one of you mods is at fault. (ie wasn't made for Awakening)
As you re-enable your mods, think about whether they add new skills or talents, or change existing skills or talents, like when you get them, or who can use them. (The Winter Forge for example adds new skills, and so it has an Origins version & an Awakening version.)
As Aleya mentioned above, Awakening in the OC mod, is a mod that changes skills & is clearly meant only for Origins.
I've never actually messed with any of the available skills/talents in the game, aside from adding mods that fix bugs such as the plus healing bug or fixing the bugged find vitals in Awakening. Other mods were either for aesthetics such as whitening the teeth, giving more hairstyles, or improving the proportions on the characters. However, it would seem that it WAS a mod that caused the problem! I took out every single mod I'd installed and voila, the skills/talents showed up.
I've started plugging mods back in now, more specifically the ones that I know I had before that worked. Such as the teeth and the hairstyles. But I'm gonna see if any of these were the culprit.
Thank you for your patience! 
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